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PacBio BAM C++ library, with SWIG bindings

License: BSD 3-Clause Clear License

CMake 1.75% C++ 92.71% Python 3.20% C# 0.01% Shell 0.18% R 2.15%

pbbam's Introduction

pbbam

Build Status Documentation Status

As of the 3.0 release of SMRTanalysis, PacBio is embracing the industry standard BAM format for (both aligned and unaligned) basecall data files. We have also formulated a BAM companion file format (bam.pbi) enabling fast access to a richer set of per-read information as well as compatibility for software built around the legacy cmp.h5 format.

The pbbam software package provides components to create, query, & edit PacBio BAM files and associated indices. These components include a core C++ library, bindings for additional languages, and command-line utilities.

Note:

This library is not intended to be used as a general-purpose BAM utility - all input & output BAMs must adhere to the PacBio BAM format specification. Non-PacBio BAMs will cause exceptions to be thrown.

Documentation

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